# List of top-scoring protein chains for t04-100-30-dssp-ehl2-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2bj7A 138 5.73e-05 a.43.1.3,d.58.18.4 128608,128609 2cpgA 45 5.64e-04 2cpgA a.43.1.3 17455 1p94A 76 1.04e-03 a.43.1.3 94380 2gpeA 52 2.23e-03 2an7A 83 3.42e-02 2q2kA 70 6.80e-02 1w6kA 732 7.32e-02 a.102.4.2,a.102.4.2 114271,114272 1x93A 55 7.61e-02 2k29A 53 1.30e-01 2aa1A 144 4.60e-01 a.1.1.2 126463 2e1dA 331 5.07e-01 2h8fA 143 5.09e-01 a.1.1.2 136239 2fbaA 492 5.16e-01 a.102.1.1 133239 1ayx 492 5.22e-01 1ayx 1ku2A 241 6.41e-01 a.4.13.1,a.177.1.1 83096,83097 2bsqE 77 7.05e-01 a.43.1.8 129102 3bwyA 214 7.46e-01 1irqA 71 9.92e-01 a.43.1.4 66297 1v4xA 144 1.11e+00 a.1.1.2 108363 2ppqA 322 1.34e+00 1mqsA 671 1.46e+00 e.25.1.1 79414 1floA 422 1.61e+00 1floA a.60.9.1,d.163.1.1 18106,42166 2ba3A 51 1.77e+00 3beeA 93 1.77e+00 2yr5A 721 2.01e+00 1t8sA 484 2.37e+00 c.56.2.1 106679 2pth 193 2.38e+00 2pth 2pthA 193 2.38e+00 c.56.3.1 33793 2o2gA 223 2.56e+00 1sk7A 198 2.83e+00 a.132.1.2 105671 1qvbA 481 3.03e+00 1qvbA c.1.8.4 28983 3bjoA 103 3.13e+00 1am9A 82 3.34e+00 1am9A a.38.1.1 17140 1h1dA 221 3.42e+00 c.66.1.1 83452 2ca9A 148 3.44e+00 1vid 221 3.83e+00 1vid 1zd1A 284 4.37e+00 1cmbA 104 4.53e+00 1cmbA a.43.1.5 17460 1cmcA 104 4.76e+00 1cmbA a.43.1.5 17462 2jd3A 130 4.95e+00 2cl5A 221 5.15e+00 c.66.1.1 130570 1ic8A 194 5.52e+00 a.4.1.1,a.35.1.1 76740,76741 2zc2A 78 5.85e+00 1tiqA 180 6.13e+00 d.108.1.1 107010 2f2bA 246 6.18e+00 1tdtA 259 6.45e+00 3tdt b.81.1.2 28055 1q0vA 81 6.48e+00 j.105.1.1 95514 3tdt 274 6.72e+00 3tdt 3tdtA 274 6.72e+00 b.81.1.2 28053 1dz4A 414 6.77e+00 1phd a.104.1.1 18903 2aieP 203 6.82e+00 2a07F 93 6.91e+00 a.4.5.14 125938 1vdlA 80 6.92e+00 a.5.2.1 108528 1yrcA 414 6.99e+00 a.104.1.1 123917 2couA 109 6.99e+00 1lm6A 215 7.17e+00 d.167.1.1 84628 1qmqA 414 7.75e+00 1phd a.104.1.1 18907 1tc3C 51 7.77e+00 1tc3C a.4.1.2 16025 1ynpA 317 7.78e+00 2dobA 83 8.56e+00 1ynfA 458 8.72e+00 d.126.1.7 123723 3bjuA 521 8.93e+00 1eexG 173 9.20e+00 1dioG a.23.2.1 16490 1syyA 346 9.88e+00 a.25.1.2 106126 1bc8C 93 9.91e+00 1awcA a.4.5.21 16168 1obpA 159 9.95e+00 1obpA b.60.1.1 27092 2amxA 376 1.01e+01 c.1.9.1 127024 1spgA 144 1.02e+01 1abwA a.1.1.2 15409 2ysrA 105 1.04e+01 2vofA 157 1.05e+01 1v84A 253 1.05e+01 c.68.1.7 108419 2qg7A 458 1.09e+01 1cei 94 1.13e+01 1cei 2gtrA 261 1.14e+01 1gt1A 159 1.17e+01 b.60.1.1 90515 2d5xB 146 1.23e+01 a.1.1.2 131283 2c9oA 456 1.30e+01 2os5A 119 1.33e+01 2r0cA 549 1.41e+01 3brcA 156 1.46e+01 1id1A 153 1.47e+01 1id1A c.2.1.9 62286 2qhoB 53 1.50e+01 1unkA 87 1.55e+01 1cei a.28.2.1 16935 1qsaA 618 1.61e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 2a4aA 281 1.62e+01 c.1.10.1 126150 2eh3A 179 1.67e+01 2rgxA 206 1.70e+01 2hpkA 208 1.75e+01 2gclA 261 1.75e+01 b.55.1.10 134991 2p61A 162 1.82e+01 2nwhA 317 1.85e+01 2anxA 146 1.86e+01 2fu2A 102 1.86e+01 1a00B 146 1.88e+01 1abwA a.1.1.2 15469 1g5hA 454 1.90e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1jbeA 128 1.91e+01 3chy c.23.1.1 62845 1vb5A 276 1.92e+01 c.124.1.5 113604 1iseA 185 1.93e+01 d.67.3.1 90691 1u8tA 129 1.93e+01 c.23.1.1 113192 1bgf 124 1.94e+01 1bgf 1bgfA 124 1.94e+01 a.90.1.1 18537 2eboA 74 1.94e+01 2eboA h.3.2.1 45754 1nijA 318 1.96e+01 c.37.1.10,d.237.1.1 85741,85742 1j1vA 94 1.96e+01 a.4.12.2 83981 2o0jA 385 1.97e+01 1ek8A 185 2.04e+01 1ek8A d.67.3.1 59444 2bgkA 278 2.04e+01 c.2.1.2 128480 1xnzA 264 2.13e+01 d.127.1.1 115673 1a01B 146 2.15e+01 1abwA a.1.1.2 15448 2d1vA 108 2.15e+01 1kz1A 159 2.16e+01 c.16.1.1 73318 2qimA 158 2.16e+01 1g71A 347 2.20e+01 1g71A d.264.1.1 43268 2d4pA 141 2.21e+01 1fr2A 86 2.23e+01 a.28.2.1 83256 1uklC 61 2.23e+01 a.38.1.1 99495 2fv2A 268 2.25e+01 1yoeA 322 2.26e+01 1pcfA 66 2.28e+01 1pcfA d.18.1.1 38142 1w1iE 357 2.29e+01 c.1.9.1 109051 1ve3A 227 2.31e+01 c.66.1.43 120010 1r9lA 309 2.31e+01 c.94.1.1 97262 1bl3A 160 2.35e+01 1b9dA c.55.3.2 33655 2i6xA 211 2.37e+01 1ng6A 148 2.41e+01 a.182.1.1 85670 1rw2A 152 2.46e+01 a.118.19.1 97961 3cz6A 168 2.49e+01 1fadA 99 2.51e+01 1fadA a.77.1.2 18428 1epwA 1290 2.52e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2fsaA 174 2.53e+01 1wbsA 360 2.53e+01 d.144.1.7 120860 1vflA 356 2.54e+01 c.1.9.1 120041 1zzlA 351 2.57e+01 d.144.1.7 125910 1cg5B 141 2.57e+01 1cg5B a.1.1.2 15585 2vl7A 540 2.58e+01 2fxaA 207 2.65e+01 a.4.5.28 134304 2d4cA 256 2.66e+01 a.238.1.1 131246 2fug1 438 2.67e+01 1bazA 53 2.72e+01 1bazA a.43.1.1 17421 1wkyA 464 2.74e+01 b.18.1.31,c.1.8.3 120992,120993 2aj6A 159 2.77e+01 d.108.1.1 126841 1vlpA 441 2.79e+01 d.41.2.2,c.1.17.2 108840,108841 1bccF 109 2.83e+01 1be3F f.27.1.1 43700 1tx9A 151 2.84e+01 a.84.1.1 119383 1ys7A 233 2.85e+01 a.4.6.1,c.23.1.1 123961,123962 2b8eA 273 2.85e+01 c.108.1.7,d.220.1.1 128068,128069 1onqA 283 2.90e+01 b.1.1.2,d.19.1.1 93365,93366 2ggcA 263 2.91e+01 d.127.1.1 135127 1go3F 107 2.94e+01 a.60.8.2 65407 2c5rA 67 2.95e+01 a.251.1.1 129944 1p2xA 159 2.96e+01 a.40.1.1 104062 1otvA 259 2.99e+01 a.132.1.4 93526 1dhr 241 3.02e+01 1dhr 2d0jA 246 3.03e+01 2b6cA 220 3.05e+01 a.118.1.17 127983 1ymmB 198 3.09e+01 b.1.1.2,d.19.1.1 123703,123704 1qs1A 462 3.10e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2hd5A 359 3.14e+01 1xszA 356 3.28e+01 a.118.3.1,d.129.9.1 116005,116006 2v74B 346 3.31e+01 1n69A 81 3.32e+01 a.64.1.3 80118 1l9xA 315 3.32e+01 c.23.16.1 73762 1h3nA 878 3.32e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 3chy 128 3.33e+01 3chy 1byqA 228 3.34e+01 1yer d.122.1.1 41100 1utuA 108 3.37e+01 1sq5A 308 3.38e+01 c.37.1.6 105882 1hrhA 136 3.42e+01 1rthA c.55.3.1 33577 2ov9A 216 3.44e+01 2oqoA 200 3.44e+01 1p5sA 203 3.47e+01 a.40.1.1 94147 1vgwA 231 3.50e+01 c.68.1.13 100612 1xrxA 50 3.50e+01 a.43.1.7 122264 1e4cP 215 3.54e+01 2fua c.74.1.1 34969 2hwvA 121 3.55e+01 2fe3A 145 3.64e+01 1jf3A 147 3.65e+01 a.1.1.2 71642 1c24A 263 3.66e+01 1c24A d.127.1.1 41148 2fwtA 125 3.66e+01 1lm4A 194 3.69e+01 d.167.1.1 84626 2j9wA 102 3.69e+01 2jgpA 520 3.72e+01 2pw4A 188 3.74e+01 1eysC 382 3.75e+01 6prcC a.138.1.2 19678 2pa4A 323 3.75e+01 2pu3A 211 3.79e+01 1bv1 159 3.81e+01 1bv1 2e0cA 409 3.84e+01 1dc1A 323 3.85e+01 1dc1A c.52.1.11 33321 1urvA 190 3.87e+01 a.1.1.2 113414 1vjqA 79 3.89e+01 k.43.1.1 100830 2ilk 160 3.96e+01 2ilk 2ilkA 160 3.96e+01 a.26.1.3 16885 1v5dA 386 3.99e+01 a.102.1.2 113537 1vkeA 133 4.01e+01 a.152.1.2 108650 1yvkA 163 4.02e+01 d.108.1.1 124101 1uhgA 385 4.08e+01 e.1.1.1 88491 2av9A 147 4.08e+01 d.38.1.1 127365 1zq7A 207 4.09e+01 d.309.1.1 125501 1lj5A 379 4.12e+01 e.1.1.1 73928 2g3vA 208 4.14e+01 1a9wE 146 4.14e+01 1cg5B a.1.1.2 15551 1t7pA 698 4.14e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1knxA 312 4.14e+01 c.98.2.1,c.91.1.2 77459,77460 2hzqA 174 4.17e+01 2bl0A 63 4.18e+01 1nkpB 83 4.18e+01 a.38.1.1 80574 1vajA 214 4.22e+01 d.309.1.1 119907 2f46A 156 4.22e+01 1ppjA 446 4.26e+01 d.185.1.1,d.185.1.1 104252,104253 1mlwA 301 4.29e+01 d.178.1.1 79289 1ads 315 4.29e+01 1frb 2rjoA 332 4.35e+01 2faoA 309 4.37e+01 1l3eB 101 4.39e+01 g.53.1.1 73536 1opc 110 4.42e+01 1opc 1opcA 110 4.42e+01 a.4.6.1 16231 2gn4A 344 4.43e+01 1q5nA 454 4.46e+01 a.127.1.1 95901 1y6nL 145 4.51e+01 1hssA 124 4.52e+01 1bea a.52.1.2 17819 1tr8A 102 4.53e+01 1yaaA 412 4.60e+01 1ajsA c.67.1.1 34280 2qtqA 213 4.61e+01 1umpA 631 4.73e+01 a.102.4.2,a.102.4.2 99619,99620 1spgB 147 4.80e+01 1cg5B a.1.1.2 15588 2in3A 216 4.81e+01 1owfB 94 4.82e+01 a.55.1.1 87488 1vp8A 201 4.87e+01 c.49.1.2 113947 1uhvA 500 4.88e+01 b.71.1.2,c.1.8.3 99402,99403 1vyrA 364 5.00e+01 c.1.4.1 108906 1a7cA 379 5.05e+01 1sek e.1.1.1 42660 2jnkA 140 5.08e+01 1cg5A 141 5.10e+01 1abwA a.1.1.2 15406 2idlA 117 5.12e+01 2z06A 252 5.13e+01 2abbA 364 5.13e+01 c.1.4.1 126517 1vqoC 246 5.15e+01 c.22.1.1 120364 1uz3A 102 5.17e+01 1ws6A 171 5.27e+01 c.66.1.46 121222 1ixsA 62 5.29e+01 a.5.1.1 76932 1l5aA 436 5.30e+01 c.43.1.2,c.43.1.2 75923,75924 2govA 195 5.37e+01 d.60.1.4 135447 1fipA 98 5.38e+01 1fipA a.4.1.12 18980 1q2zA 120 5.39e+01 a.118.19.1 95656 2hlvA 160 5.49e+01 1d2kA 392 5.50e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 2q3mA 326 5.52e+01 c.37.1.5 139795 2agtA 319 5.55e+01 1s3rA 535 5.56e+01 1gw5S 142 5.57e+01 d.110.4.2 70633 2ajtA 500 5.58e+01 b.43.2.2,c.85.1.2 126894,126895 1fm4A 159 5.58e+01 1bv1 d.129.3.1 76186 2d68A 82 5.59e+01 1uujA 88 5.60e+01 a.221.1.1 108046 1ywrA 360 5.83e+01 1nlwB 76 5.85e+01 a.38.1.1 80634 2ef8A 84 5.91e+01 1mdyA 68 6.02e+01 1mdyA a.38.1.1 17132 1mkeA 152 6.07e+01 b.55.1.4 79231 2b81A 323 6.13e+01 2plxB 26 6.15e+01 1vheA 373 6.16e+01 b.49.3.1,c.56.5.4 100669,100670 1us0A 316 6.19e+01 c.1.7.1 99850 2g0dA 409 6.20e+01 2b5tI 432 6.20e+01 e.1.1.1 127905 2oplA 187 6.23e+01 1dixA 208 6.30e+01 1bk7A d.124.1.1 41122 1q5dA 419 6.38e+01 a.104.1.1 95891 1ig8A 486 6.39e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1vypX 364 6.39e+01 c.1.4.1 108905 3brvA 48 6.39e+01 1p2fA 220 6.43e+01 a.4.6.1,c.23.1.1 87720,87721 2ifsA 169 6.44e+01 1h8mA 140 6.46e+01 1h8mA d.110.4.1 60782 1m12A 84 6.49e+01 a.64.1.1 84745 1uylA 236 6.52e+01 d.122.1.1 108147 1o22A 170 6.54e+01 d.238.1.1 86557 1z5hA 780 6.56e+01 1gcvA 140 6.56e+01 1cg5B a.1.1.2 15410 1itg 166 6.64e+01 1b9dA 1v82A 253 6.64e+01 c.68.1.7 108415 1etxA 98 6.68e+01 1fipA a.4.1.12 18978 1evlA 401 6.71e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 3c57A 95 6.72e+01 2rn2 155 6.74e+01 2rn2 1t56A 216 6.75e+01 a.4.1.9,a.121.1.1 106428,106429 2z00A 426 6.75e+01 1y37A 304 6.78e+01 2v3mA 131 6.79e+01 2efvA 92 6.83e+01 2jmzA 186 6.85e+01 2dh2A 424 6.85e+01 1yemA 179 6.88e+01 d.63.1.2 116646 1oaiA 59 6.89e+01 a.5.2.3 81255 1dat 174 6.90e+01 2fha 2hwyA 164 6.91e+01 2fikA 287 6.94e+01 b.1.1.2,d.19.1.1 133524,133525 1eyqA 222 6.95e+01 1eypA d.36.1.1 38534 1irdB 146 6.95e+01 a.1.1.2 66287 1ybeA 449 6.99e+01 c.1.17.2,d.41.2.2 116605,116606 1bh9B 89 6.99e+01 1bh9B a.22.1.3 16485 2j82A 240 7.03e+01 2ebeA 106 7.03e+01 1a4mA 349 7.05e+01 1a4mA c.1.9.1 29014 1ll7A 392 7.07e+01 c.1.8.5,d.26.3.1 78085,78086 2j1oA 268 7.08e+01 3c5tB 31 7.10e+01 3c5vA 316 7.14e+01 1fkx 349 7.16e+01 1a4mA 2a9kB 223 7.26e+01 d.166.1.1 126443 1hb6A 86 7.27e+01 a.11.1.1 70959 2nteA 210 7.32e+01 2j0wA 449 7.40e+01 c.73.1.3,d.58.18.10,d.58.18.10 137923,137924,137925 2f9zC 159 7.43e+01 2cwoA 197 7.43e+01 2h1tA 188 7.43e+01 1furA 467 7.45e+01 1furA a.127.1.1 19403 2jgdA 933 7.46e+01 2j3xA 431 7.48e+01 2fstX 367 7.53e+01 1fioA 196 7.57e+01 1fioA a.47.2.1 17773 1tuzA 118 7.68e+01 a.39.1.7 112670 2q07A 306 7.72e+01 1r45A 204 7.73e+01 d.166.1.1 111683 1oc0A 379 7.73e+01 e.1.1.1 86790 3bw6A 144 7.73e+01 1o1xA 155 7.75e+01 c.121.1.1 86553 2bh9A 489 7.79e+01 1q9jA 422 7.79e+01 c.43.1.2,c.43.1.2 104590,104591 2epiA 100 7.80e+01 256bA 106 7.84e+01 256bA a.24.3.1 16539 1ct5A 256 7.85e+01 1ct5A c.1.6.2 28663 3proC 166 7.87e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1kktA 511 7.90e+01 a.102.2.1 68687 2oznB 140 7.94e+01 2blfB 81 7.95e+01